Isn't Jadus only captured if you choose that option on the Agent? I haven't run all the FPs/OPs/what have you, but having completed Agent storyline, I know you can work for Jadus, and I know my Agent tried to blow him up with the ship, but he got away and was never heard from again.

Spoiler

As far as I know, Jadus escapes no matter what. If you try to capture him, you get to fight him, but the mission makes note of the fact that his personal shuttle was seen fleeing the ship right before it's destroyed. If you talk him down, similarly, he flees, and if you decide to join him, obviously, he stays in charge.